pycom14g00050

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr14
OG0000562
Physical Location & Seq
Forward (+)
44270 .. 44697
428 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom14g00050.1

Sequence Viewer

Length: 387 bp
ATGGCTGAAGAAAGCTTAGTAAATTTGGAAGGAGACGGCTTTCATGCTACTCCACCATCACCACACTCAGATATTGATATCAACCCAAATCAACGTCTTAGTTCTGTCTTGCTAAATGAGTTTAACTATCTTCCATGGGAGAGAGCAGTTTCTCTTGCTCTGGGAGGACGATCAAAGCTTGGTTATGTTAATGGTGCTATTCCAATGCCTGAGACTACCTCACCGGAGTATGATGCTTGGCTATGCAAAGACCAGTTGGTCATGTCGTGGCTACTCAATTCCATGGATCGTAAGATTGCAGAAATTTTTAGCTATGCTGAATCCTCCATGACTCTTTGGAAAAATCTCAAGGAAATCAGAACAATGCGGCTAGAGTGTTTCAGTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Retrotran_gag_2 Retrotran_gag_3 rve

Protein Analysis

129

Amino Acids

14.53

Weight (kDa)

4.83

Isoelectric Point (pI)

50.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_3 PF14244 31 - 70 8.6e-13 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000562)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g17331 FvH4_3g36541
malus_domestica MD07G1078600.v1.1 MD10G1237700.v1.1 MD10G1333400.v1.1 MD11G1102200.v1.1 MD13G1138400.v1.1 MD14G1033400.v1.1 MD15G1053300.v1.1
prunus_persica Prupe.1G465400_v2.0.a1 Prupe.3G136000_v2.0.a1 Prupe.7G119900_v2.0.a1
pyrus_communis pycom01g04630 pycom03g13050 pycom04g21190 pycom05g04910 pycom05g05510 pycom08g15850 pycom09g15040 pycom1094g00010 pycom11g02000 pycom12g06150 pycom13g24110 pycom13g24910 pycom14g00050 pycom15g21970 pycom15g35170 pycom15g35180 pycom16g14620 pycom16g14630 pycom808g00110
rosa_chinensis RchiOBHm_Chr1g0322851 RchiOBHm_Chr1g0365941 RchiOBHm_Chr3g0453341 RchiOBHm_Chr4g0388371 RchiOBHm_Chr4g0394021 RchiOBHm_Chr5g0013181 RchiOBHm_Chr6g0261721 RchiOBHm_Chr6g0261731 RchiOBHm_Chr7g0188861 RchiOBHm_Chr7g0192331 RchiOBHm_Chr7g0231721
rosa_multiflora Rmu_sc0002521.1_g000006 Rmu_sc0003255.1_g000026 Rmu_sc0004191.1_g000036 Rmu_sc0004414.1_g000014 Rmu_sc0005670.1_g000006 Rmu_sc0006081.1_g000001 Rmu_sc0007215.1_g000004 Rmu_sc0010088.1_g000010 Rmu_sc0020285.1_g000003 Rmu_sc0026896.1_g000002 Rmu_ssc0000019.1_g000029
rosa_roxburghii Rroxscaffold_3G00224890 Rroxscaffold_6G00400640 Rroxscaffold_7G00176590 Rroxscaffold_7G00189230
rosa_samantha Rh4BG046700
rosa_wichuraiana Rw1G012690 Rw1G031370 Rw2G042180 Rw2G043670 Rw2G046240 Rw2G049890 Rw2G050760 Rw2G051280 Rw2G053590 Rw3G007590 Rw3G026850 Rw4G001540 Rw4G009760 Rw4G019270 Rw5G000720 Rw5G005620 Rw5G041560 Rw6G007370 Rw6G009830 Rw6G015360 Rw6G031160 Rw7G004930 Rw7G011010 Rw7G024230 Rw7G028240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 257
AciI CCGC 1 cut(s) 367
AclWI GGATC 1 cut(s) 294
AcsI RAATTY 2 cut(s) 22, 303
AcuI CTGAAG 1 cut(s) 27
AluBI AGCT 3 cut(s) 15, 178, 312
AluI AGCT 3 cut(s) 15, 178, 312
Alw26I GTCTC 2 cut(s) 27, 206
AlwI GGATC 1 cut(s) 294
ApoI RAATTY 2 cut(s) 22, 303
AsuHPI GGTGA 2 cut(s) 51, 213
BccI CCATC 1 cut(s) 64
BceAI ACGGC 1 cut(s) 52
BcoDI GTCTC 2 cut(s) 27, 206
BfaI CTAG 1 cut(s) 371
BisI GCNGC 1 cut(s) 368
BlsI GCNGC 1 cut(s) 369
BmsI GCATC 1 cut(s) 223
BplI GAGNNNNNCTC 2 cut(s) 203, 235
BpuEI CTTGAG 1 cut(s) 332
BsaJI CCNNGG 2 cut(s) 134, 282
BsaWI WCCGGW 1 cut(s) 223
Bse1I ACTGG 1 cut(s) 253
BseDI CCNNGG 2 cut(s) 134, 282
BseMII CTCAG 2 cut(s) 81, 201
BseNI ACTGG 1 cut(s) 253
BsiSI CCGG 1 cut(s) 224
BsmAI GTCTC 2 cut(s) 27, 206
BsmBI CGTCTC 1 cut(s) 27
Bsp143I GATC 2 cut(s) 170, 286
Bsp19I CCATGG 2 cut(s) 134, 282
BspACI CCGC 1 cut(s) 367
BspCNI CTCAG 2 cut(s) 80, 202
BspPI GGATC 1 cut(s) 294
BsrI ACTGG 1 cut(s) 253
BssECI CCNNGG 2 cut(s) 134, 282
BssMI GATC 2 cut(s) 170, 286
BssT1I CCWWGG 2 cut(s) 134, 282
BstDEI CTNAG 4 cut(s) 16, 67, 98, 210
BstDSI CCRYGG 2 cut(s) 134, 282
BstKTI GATC 2 cut(s) 173, 289
BstMAI GTCTC 2 cut(s) 27, 206
BstMBI GATC 2 cut(s) 170, 286
BtgI CCRYGG 2 cut(s) 134, 282
CviAII CATG 5 cut(s) 44, 135, 262, 283, 328
CviJI RGCY 8 cut(s) 5, 15, 39, 178, 241, 271, 312, 370
CviKI_1 RGCY 8 cut(s) 5, 15, 39, 178, 241, 271, 312, 370
DdeI CTNAG 4 cut(s) 16, 67, 98, 210
DpnI GATC 2 cut(s) 172, 288
DpnII GATC 2 cut(s) 170, 286
DrdI GACNNNNNNGTC 1 cut(s) 257
DseDI GACNNNNNNGTC 1 cut(s) 257
Eco130I CCWWGG 2 cut(s) 134, 282
Eco32I GATATC 1 cut(s) 79
Eco57I CTGAAG 1 cut(s) 27
EcoRV GATATC 1 cut(s) 79
EcoT14I CCWWGG 2 cut(s) 134, 282
ErhI CCWWGG 2 cut(s) 134, 282
Esp3I CGTCTC 1 cut(s) 27
FaeI CATG 5 cut(s) 47, 138, 265, 286, 331
FaiI YATR 9 cut(s) 45, 136, 186, 231, 244, 263, 284, 315, 329
FatI CATG 5 cut(s) 43, 134, 261, 282, 327
Fnu4HI GCNGC 1 cut(s) 368
Fsp4HI GCNGC 1 cut(s) 368
FspBI CTAG 1 cut(s) 371
GluI GCNGC 1 cut(s) 368
HapII CCGG 1 cut(s) 224
Hin1II CATG 5 cut(s) 47, 138, 265, 286, 331
HindIII AAGCTT 2 cut(s) 13, 176
HinfI GANTC 2 cut(s) 320, 331
HpaII CCGG 1 cut(s) 224
HphI GGTGA 2 cut(s) 51, 213
Hpy188I TCNGA 2 cut(s) 70, 359
HpyAV CCTTC 1 cut(s) 23
HpyCH4IV ACGT 1 cut(s) 94
HpyCH4V TGCA 2 cut(s) 246, 299
HpyF3I CTNAG 4 cut(s) 16, 67, 98, 210
HpySE526I ACGT 1 cut(s) 94
Hsp92II CATG 5 cut(s) 47, 138, 265, 286, 331
Kzo9I GATC 2 cut(s) 170, 286
LpnPI CCDG 4 cut(s) 146, 222, 237, 266
LweI GCATC 1 cut(s) 223
MaeI CTAG 1 cut(s) 371
MaeII ACGT 1 cut(s) 94
MalI GATC 2 cut(s) 172, 288
MboI GATC 2 cut(s) 170, 286
MboII GAAGA 2 cut(s) 20, 122
MluCI AATT 3 cut(s) 22, 277, 303
MlyI GAGTC 1 cut(s) 325
MnlI CCTC 3 cut(s) 158, 229, 334
MseI TTAA 3 cut(s) 123, 189, 385
MspI CCGG 1 cut(s) 224
NcoI CCATGG 2 cut(s) 134, 282
NdeII GATC 2 cut(s) 170, 286
NlaIII CATG 5 cut(s) 47, 138, 265, 286, 331
PfeI GAWTC 1 cut(s) 320
PkrI GCNGC 1 cut(s) 369
PleI GAGTC 1 cut(s) 325
PpsI GAGTC 1 cut(s) 325
SaqAI TTAA 3 cut(s) 123, 189, 385
SatI GCNGC 1 cut(s) 368
Sau3AI GATC 2 cut(s) 170, 286
SchI GAGTC 1 cut(s) 325
SetI ASST 5 cut(s) 17, 97, 180, 221, 314
SfaNI GCATC 1 cut(s) 223
SmlI CTYRAG 1 cut(s) 347
SmoI CTYRAG 1 cut(s) 347
Sse9I AATT 3 cut(s) 22, 277, 303
SsiI CCGC 1 cut(s) 367
SspMI CTAG 1 cut(s) 371
StyI CCWWGG 2 cut(s) 134, 282
TaiI ACGT 1 cut(s) 97
TasI AATT 3 cut(s) 22, 277, 303
TauI GCSGC 1 cut(s) 370
TfiI GAWTC 1 cut(s) 320
Tru1I TTAA 3 cut(s) 123, 189, 385
Tru9I TTAA 3 cut(s) 123, 189, 385
TspDTI ATGAA 1 cut(s) 32
XapI RAATTY 2 cut(s) 22, 303
XspI CTAG 1 cut(s) 371
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.